Rh1DG440900

50S ribosomal protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1D
OG0015063
Physical Location & Seq
Reverse (-)
65112276 .. 65114443
2168 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1DG440900.1

Sequence Viewer

Length: 528 bp
ATGCAGAATGTGGATAAGCTCGGCAAGGCCGGTGAGACTGTGAAGGTTGCGCCGGGGCATTTCCGCAACCACTTGATGCCGAAATTGCTTGCTGTACCCAACATTGACAAGTATGCCTATCTCATAAGACAGCAGCGAAAGAATGCCCCCCTGGAAGAAGAGGAGGAGAAGGAGGAGGTTAAAGTGGTTACTGTGTCCGAGGAAGTTAAGATGAAAGAATATGAAAAGGCAGCGAAGCGTCTGGATAATGCTCGTCTGGTATTGCGGAGGAACATTAATCTTGAAAAGTTCAGGACACGTGCAACAAAGGAAGACCCTATAGAATTGCGTTCTACAGTGACCAAGGAGGATATTGTGGCTGAGGTGGCAAGGCAGCTTTCTATAGGGTTAGAACCTGAGAACGTGCATCTACCATCTCCATTGTCAACTGTAGGAGAGTATGAGGTACCACTGCGCCTTCCGAGATCCATCCCTTTGCCGGCAGGGAAGGTTCATTGGACACTTAATGTTAAAATCCGATGCGCATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03010 map03010
Pfam Domains
Protein Families
Ribosomal_L9_C Ribosomal_L9_N

Protein Analysis

175

Amino Acids

19.99

Weight (kDa)

9.27

Isoelectric Point (pI)

57.69

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Ribosomal_L9_N PF01281 2 - 33 3.4e-10 Ribosomal protein L9, N-terminal domain
Ribosomal_L9_C PF03948 108 - 156 1.5e-06 Ribosomal protein L9, C-terminal domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0015063)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G53070
fragaria_vesca FvH4_7g32000
malus_domestica MD07G1293600.v1.1
prunus_persica Prupe.2G313400_v2.0.a1 Prupe.2G313400_v2.0.a1 Prupe.2G313400_v2.0.a1
pyrus_communis pycom07g26640
rosa_chinensis RchiOBHm_Chr1g0381511
rosa_laevigata RLG00000026226
rosa_roxburghii Rroxscaffold_4G00278600
rosa_rugosa Rorug01G0429100
rosa_samantha Rh1AG452300 Rh1BG409600 Rh1CG424100 Rh1DG440900
rosa_wichuraiana Rw1G039490

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 523
Acc65I GGTACC 1 cut(s) 445
AccB1I GGYRCC 1 cut(s) 445
AciI CCGC 2 cut(s) 64, 265
AclWI GGATC 1 cut(s) 459
AcvI CACGTG 1 cut(s) 299
AfaI GTAC 2 cut(s) 96, 447
AfiI CCNNNNNNNGG 1 cut(s) 478
AflIII ACRYGT 1 cut(s) 296
AgsI TTSAA 1 cut(s) 284
AjnI CCWGG 1 cut(s) 150
AluBI AGCT 2 cut(s) 19, 376
AluI AGCT 2 cut(s) 19, 376
Alw26I GTCTC 1 cut(s) 29
AlwI GGATC 1 cut(s) 459
AoxI GGCC 1 cut(s) 27
ApeKI GCWGC 3 cut(s) 133, 230, 373
AseI ATTAAT 1 cut(s) 276
Asp718I GGTACC 1 cut(s) 445
AspLEI GCGC 3 cut(s) 52, 456, 524
AsuC2I CCSGG 1 cut(s) 54
AsuHPI GGTGA 1 cut(s) 44
BanI GGYRCC 1 cut(s) 445
BbrPI CACGTG 1 cut(s) 299
BbsI GAAGAC 1 cut(s) 318
BbvCI CCTCAGC 1 cut(s) 360
BbvI GCAGC 3 cut(s) 145, 242, 385
BccI CCATC 2 cut(s) 421, 476
BciT130I CCWGG 1 cut(s) 152
BcnI CCSGG 1 cut(s) 54
BcoDI GTCTC 1 cut(s) 29
BfmI CTRYAG 4 cut(s) 318, 333, 381, 429
BisI GCNGC 3 cut(s) 134, 231, 374
BlsI GCNGC 3 cut(s) 135, 232, 375
Bme1390I CCNGG 2 cut(s) 54, 152
BmiI GGNNCC 1 cut(s) 447
BmrFI CCNGG 2 cut(s) 54, 152
BmsI GCATC 3 cut(s) 66, 415, 509
BpiI GAAGAC 1 cut(s) 318
Bpu10I CCTNAGC 1 cut(s) 360
BpuMI CCSGG 1 cut(s) 54
BsaAI YACGTR 1 cut(s) 299
BsaJI CCNNGG 4 cut(s) 53, 150, 198, 342
Bsc4I CCNNNNNNNGG 1 cut(s) 478
Bse118I RCCGGY 2 cut(s) 29, 478
BseBI CCWGG 1 cut(s) 152
BseDI CCNNGG 4 cut(s) 53, 150, 198, 342
BseGI GGATG 1 cut(s) 468
BseLI CCNNNNNNNGG 1 cut(s) 478
BseMII CTCAG 2 cut(s) 351, 387
BseRI GAGGAG 3 cut(s) 176, 179, 188
BseXI GCAGC 3 cut(s) 145, 242, 385
BshFI GGCC 1 cut(s) 29
BshNI GGYRCC 1 cut(s) 445
BsiSI CCGG 3 cut(s) 30, 53, 479
BslI CCNNNNNNNGG 1 cut(s) 478
BsmAI GTCTC 1 cut(s) 29
BsmI GAATGC 1 cut(s) 148
BsnI GGCC 1 cut(s) 29
Bsp143I GATC 1 cut(s) 464
BspACI CCGC 2 cut(s) 64, 265
BspANI GGCC 1 cut(s) 29
BspCNI CTCAG 2 cut(s) 352, 388
BspLI GGNNCC 1 cut(s) 447
BspPI GGATC 1 cut(s) 459
BspT107I GGYRCC 1 cut(s) 445
BsrFI RCCGGY 2 cut(s) 29, 478
BssAI RCCGGY 2 cut(s) 29, 478
BssECI CCNNGG 4 cut(s) 53, 150, 198, 342
BssMI GATC 1 cut(s) 464
BssT1I CCWWGG 1 cut(s) 342
Bst2UI CCWGG 1 cut(s) 152
Bst4CI ACNGT 4 cut(s) 40, 193, 337, 430
Bst6I CTCTTC 1 cut(s) 153
BstBAI YACGTR 1 cut(s) 299
BstC8I GCNNGC 2 cut(s) 90, 480
BstDEI CTNAG 2 cut(s) 360, 396
BstF5I GGATG 1 cut(s) 468
BstHHI GCGC 3 cut(s) 52, 456, 524
BstKTI GATC 1 cut(s) 467
BstMAI GTCTC 1 cut(s) 29
BstMBI GATC 1 cut(s) 464
BstMWI GCNNNNNNNGC 2 cut(s) 85, 365
BstNI CCWGG 1 cut(s) 152
BstSCI CCNGG 2 cut(s) 52, 150
BstSFI CTRYAG 4 cut(s) 318, 333, 381, 429
BstV1I GCAGC 3 cut(s) 145, 242, 385
BstV2I GAAGAC 1 cut(s) 318
BstX2I RGATCY 1 cut(s) 464
BstYI RGATCY 1 cut(s) 464
BsuRI GGCC 1 cut(s) 29
BtsCI GGATG 1 cut(s) 468
BtsI GCAGTG 1 cut(s) 449
BtsIMutI CAGTG 2 cut(s) 342, 449
Cac8I GCNNGC 2 cut(s) 90, 480
CfoI GCGC 3 cut(s) 52, 456, 524
Cfr10I RCCGGY 2 cut(s) 29, 478
CseI GACGC 1 cut(s) 227
Csp6I GTAC 2 cut(s) 95, 446
CviJI RGCY 4 cut(s) 19, 29, 359, 376
CviKI_1 RGCY 4 cut(s) 19, 29, 359, 376
CviQI GTAC 2 cut(s) 95, 446
DdeI CTNAG 2 cut(s) 360, 396
DpnI GATC 1 cut(s) 466
DpnII GATC 1 cut(s) 464
Eam1104I CTCTTC 1 cut(s) 153
EarI CTCTTC 1 cut(s) 153
Eco130I CCWWGG 1 cut(s) 342
Eco72I CACGTG 1 cut(s) 299
EcoRII CCWGG 1 cut(s) 150
EcoT14I CCWWGG 1 cut(s) 342
ErhI CCWWGG 1 cut(s) 342
FaiI YATR 7 cut(s) 114, 125, 222, 320, 383, 441, 526
Fnu4HI GCNGC 3 cut(s) 134, 231, 374
FokI GGATG 1 cut(s) 455
Fsp4HI GCNGC 3 cut(s) 134, 231, 374
FspAI RTGCGCAY 1 cut(s) 523
FspI TGCGCA 1 cut(s) 523
GlaI GCGC 3 cut(s) 51, 455, 523
GluI GCNGC 3 cut(s) 134, 231, 374
HaeIII GGCC 1 cut(s) 29
HapII CCGG 3 cut(s) 30, 53, 479
HgaI GACGC 1 cut(s) 227
HhaI GCGC 3 cut(s) 52, 456, 524
Hin6I GCGC 3 cut(s) 50, 454, 522
HinP1I GCGC 3 cut(s) 50, 454, 522
HincII GTYRAC 1 cut(s) 426
HindII GTYRAC 1 cut(s) 426
HpaII CCGG 3 cut(s) 30, 53, 479
HphI GGTGA 1 cut(s) 44
Hpy166II GTNNAC 1 cut(s) 426
Hpy188I TCNGA 3 cut(s) 199, 462, 518
Hpy188III TCNNGA 3 cut(s) 242, 281, 292
Hpy8I GTNNAC 1 cut(s) 426
HpyAV CCTTC 4 cut(s) 37, 163, 467, 481
HpyCH4III ACNGT 4 cut(s) 40, 193, 337, 430
HpyCH4IV ACGT 2 cut(s) 298, 402
HpyCH4V TGCA 3 cut(s) 4, 302, 406
HpyF10VI GCNNNNNNNGC 2 cut(s) 85, 365
HpyF3I CTNAG 2 cut(s) 360, 396
HpySE526I ACGT 2 cut(s) 298, 402
HspAI GCGC 3 cut(s) 50, 454, 522
KpnI GGTACC 1 cut(s) 449
KroI GCCGGC 1 cut(s) 478
KroNI GCCGGC 1 cut(s) 480
Kzo9I GATC 1 cut(s) 464
Lsp1109I GCAGC 3 cut(s) 145, 242, 385
LweI GCATC 3 cut(s) 66, 415, 509
MaeII ACGT 2 cut(s) 298, 402
MaeIII GTNAC 2 cut(s) 187, 337
MalI GATC 1 cut(s) 466
MboI GATC 1 cut(s) 464
MboII GAAGA 3 cut(s) 167, 170, 323
MflI RGATCY 1 cut(s) 464
MluCI AATT 2 cut(s) 83, 323
MnlI CCTC 9 cut(s) 154, 157, 166, 169, 193, 261, 340, 355, 436
MroNI GCCGGC 1 cut(s) 478
MseI TTAA 5 cut(s) 180, 207, 276, 504, 510
MspI CCGG 3 cut(s) 30, 53, 479
MspR9I CCNGG 2 cut(s) 54, 152
Mva1269I GAATGC 1 cut(s) 148
MvaI CCWGG 1 cut(s) 152
MwoI GCNNNNNNNGC 2 cut(s) 85, 365
NaeI GCCGGC 1 cut(s) 480
NciI CCSGG 1 cut(s) 54
NdeII GATC 1 cut(s) 464
NgoMIV GCCGGC 1 cut(s) 478
NlaIV GGNNCC 1 cut(s) 447
NmuCI GTSAC 1 cut(s) 337
NsbI TGCGCA 1 cut(s) 523
PctI GAATGC 1 cut(s) 148
PdiI GCCGGC 1 cut(s) 480
PkrI GCNGC 3 cut(s) 135, 232, 375
PmaCI CACGTG 1 cut(s) 299
PmlI CACGTG 1 cut(s) 299
Ppu21I YACGTR 1 cut(s) 299
PshBI ATTAAT 1 cut(s) 276
Psp6I CCWGG 1 cut(s) 150
PspCI CACGTG 1 cut(s) 299
PspGI CCWGG 1 cut(s) 150
PspN4I GGNNCC 1 cut(s) 447
PsuI RGATCY 1 cut(s) 464
RsaI GTAC 2 cut(s) 96, 447
RsaNI GTAC 2 cut(s) 95, 446
SaqAI TTAA 5 cut(s) 180, 207, 276, 504, 510
SatI GCNGC 3 cut(s) 134, 231, 374
Sau3AI GATC 1 cut(s) 464
ScrFI CCNGG 2 cut(s) 54, 152
SfaNI GCATC 3 cut(s) 66, 415, 509
SfcI CTRYAG 4 cut(s) 318, 333, 381, 429
Sse9I AATT 2 cut(s) 83, 323
SsiI CCGC 2 cut(s) 64, 265
StyD4I CCNGG 2 cut(s) 52, 150
StyI CCWWGG 1 cut(s) 342
TaaI ACNGT 4 cut(s) 40, 193, 337, 430
TaiI ACGT 2 cut(s) 301, 405
TasI AATT 2 cut(s) 83, 323
Tru1I TTAA 5 cut(s) 180, 207, 276, 504, 510
Tru9I TTAA 5 cut(s) 180, 207, 276, 504, 510
TscAI CASTG 2 cut(s) 342, 456
TseFI GTSAC 1 cut(s) 337
TseI GCWGC 3 cut(s) 133, 230, 373
Tsp45I GTSAC 1 cut(s) 337
TspDTI ATGAA 3 cut(s) 227, 237, 482
TspRI CASTG 2 cut(s) 342, 456
VspI ATTAAT 1 cut(s) 276
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.